Showing : rna • reset
3
votes
6
replies
347
views
Limma: log2 of TMM values for RNA-Seq Analysis and PlotMDS()?
Log2 edgeR RNA limma Normalization
11 weeks ago Sara • 0
0
votes
0
replies
102
views
Correct GFF3 translation for FeatureCounts
RNASeq FeatureCounts Rna
3 months ago rridley3 • 0
0
votes
1
reply
176
views
Confused about design for RNA seq experiment
RNAseq ExperimentData RNAseq123 RNA ExperimentalDesign
updated 4 months ago by ★ 2.1k • written 4 months ago by • 0
0
votes
0
replies
253
views
Job: Scientist/Senior Scientist – Bioinformatics / Computational Biology
MassSpectrometryData RNA DifferentialExpression
5 months ago António Miguel de Jesus Domingues ▴ 490
0
votes
2
replies
293
views
Rsubread align --R session aborts
RNA Alignment Rsubread
6 months ago • updated 5 months ago sreekalasn • 0
2
votes
1
reply
299
views
Error in RNAseq123 analysis, unexpected symbol.
RNAseq123 Rna
updated 7 months ago by 47k • written 7 months ago by • 0
1
vote
2
replies
485
views
Is it necessary to standardize Combat in R?
RNA Combat sva R
8 months ago takemoto • 0
1
vote
1
reply
319
views
Description of the headers obtained from the Eligos2 output
methylation RNA native epitranscriptomics
updated 11 months ago by ▴ 80 • written 11 months ago by ▴ 10
0
votes
1
reply
387
views
Ensembl dataset version
tximport rna rnaseqGene biomaRt
updated 13 months ago by ★ 2.1k • written 13 months ago by • 0
0
votes
0
replies
312
views
Cross-cultivar RNA-seq analysis
RNA Normalization
21 months ago nancy • 0
0
votes
4
replies
693
views
Fitting a continuous variable with batch effect using Limma. Also a question about normalization.
limma edgeR rna
22 months ago Nirad • 0
0
votes
3
replies
1.1k
views
Pearson correlation between gene expression and phenotype
edgeR RNASeq
updated 2.2 years ago by 47k • written 2.2 years ago by • 0
4
votes
3
replies
959
views
How to resolve NAs when annotating a diff gene list with org.Hs.eg.db terms?
annotation rna
updated 2.3 years ago by 62k • written 2.3 years ago by ▴ 20
2
votes
7
replies
649
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy rna hta2.0 r
updated 2.7 years ago by 62k • written 2.7 years ago by • 0
1
vote
1
reply
388
views
How to interpret coefficients of time course modeled data with DESeq2?
deseq2 RNA
updated 2.8 years ago by 39k • written 2.8 years ago by • 0
0
votes
6
replies
581
views
Bizarre Dispersion Plots
deseq2 RNA RNASeq
updated 2.9 years ago by 39k • written 2.9 years ago by • 0
0
votes
0
replies
511
views
Job: Post-doctoral Fellowship at BC Cancer Research Center, Vancouver BC
single cell RNA Data analysis Bioinformatics Job
3.6 years ago jmaanaki • 0
1
vote
1
reply
740
views
how to filter genes in significant module?
RNA WGCNA filter
3.6 years ago modarzi ▴ 10
0
votes
2
replies
552
views
DESeq and checkFullRank(modelMatrix)
RNA DESeq2
updated 3.8 years ago by 39k • written 3.8 years ago by ▴ 10
2
votes
1
reply
459
views
DESeq2 statistic and design
deseq2 RNA
updated 3.8 years ago by 39k • written 3.8 years ago by ▴ 10
5
votes
5
replies
826
views
Association analysis between gene expression and Phenotype
rna singlecell limma
updated 3.9 years ago by ★ 28k • written 3.9 years ago by ▴ 20
2
votes
3
replies
705
views
Number and percent of mapped reads from RNA seq analysis.
rna-seq rna
updated 3.9 years ago by 13k • written 3.9 years ago by ▴ 20
1
vote
0
replies
598
views
Job: 1 Computational Biologist and 1 Molecular Biologist
computational biology molecular biology RNA r-loop ncRNA Job
4.3 years ago l.brown ▴ 10
0
votes
0
replies
580
views
R code for finding wobble/redundant positions in an RNA string
r code rna wobble
5.0 years ago fawazfebin ▴ 50
0
votes
1
reply
658
views
Time series comparison with DESEQ2
RNA rnaseq deseq2
updated 5.5 years ago by 39k • written 5.5 years ago by ▴ 20
0
votes
1
reply
1.1k
views
RNA sequencing analysis for time point experiment using DeSeq2
deseq2 RNA rnaseq
updated 5.5 years ago by 39k • written 5.5 years ago by ▴ 20
1
vote
1
reply
854
views
Outliers - to remove or to not remove that is the question
outliers rna microarray
updated 5.7 years ago by ▴ 400 • written 5.7 years ago by ▴ 30
5
votes
4
replies
931
views
Experiment design contrasts any time edgeR
DGE rnaseq RNA edger
updated 5.7 years ago by • 0 • written 5.7 years ago by ▴ 40
3
votes
6
replies
1.4k
views
Regressing effect of treatment on RNA-seq expected count from rsem.
RNA rna-seq science bioinformatics
updated 5.8 years ago by 62k • written 5.8 years ago by ▴ 20
6
votes
5
replies
2.8k
views
Clustering differential expression results from voomWithQualityWeights
RNA limma rsem edgeR
updated 5.8 years ago by 47k • written 5.8 years ago by ▴ 20
0
votes
0
replies
1.0k
views
Finding candidate binding sites for RNA binding proteins in R
R bioconductor RNA mRNA RNA binding proteins
5.9 years ago Walter F. Baumann ▴ 10
3
votes
1
reply
1.3k
views
Targeted RNASeq/CaptureSeq DE Analysis
EdgeR deseq2 RNA differential expression
updated 6.4 years ago by ★ 28k • written 6.4 years ago by • 0
0
votes
4
replies
4.4k
views
RNAseq Adjusting for Covariates?
RNA rnaseq Covariate adjustment deseq
updated 6.9 years ago by 39k • written 6.9 years ago by • 0
0
votes
2
replies
975
views
Normalizzation indipentent data from RNAAeq experiment
rna normalization
8.3 years ago aristotele_m ▴ 30
34 results • Page 1 of 1
Recent ...
Replies
Comment: TCGA: clinical data and expression data by sharifnstu1203002m • 0
Hello, I am in the same problem. I downloaded "transcriptome profiling" data of TCGA by using the Bioconductor package. I get my gene expr…
Comment: How to normalize long-read RNA-seq data for comparison with short-reads by Jonathan Göke ▴ 40
Great to hear that you are using Bambu. Yes, I think that part of your question does not have one correct answer, there are many ways in wh…
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R by Gordon Smyth 47k
Choosing which samples to normalize together is not dependent on library size but rather on (1) whether the tissue samples are comparable a…
Comment: Atena package - error (new user) by lalanis1 • 0
Thanks a lot, Calvo. Will run my files with revised version soon! Best regards, Lalani
Comment: Nested paired design with covariates in limma by Gordon Smyth 47k
Please post a new question with enough detail to answer your question. If you want bespoke advance, then you need to post the details of yo…
Votes
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R
C: Can't install TopmedPipeline Package
Comment: Question about GWASTools gdsSubset
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
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